BLASTP 2.2.18 [Mar-02-2008]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 0002.0645.p
         (306 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313551|ref|YP_003777643.1| ABC transporter permease [Herba...   520   e-149
gi|300310743|ref|YP_003774835.1| ABC transporter permease [Herba...   140   1e-34

>gi|300313551|ref|YP_003777643.1| ABC transporter permease
           [Herbaspirillum seropedicae SmR1]
          Length = 306

 Score =  520 bits (1339), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 274/306 (89%), Positives = 292/306 (95%)

Query: 1   MDQLAPLIAASINAGTPLLLAAIGLLINERAGVLNLGAEGMMLVAAIAGFAVGYTTRSPL 60
           M+QLAPLIAASINAGTPLLLAAIGLLINER+GVLNLGAEGMMLVAAIAGFAVGYTT+SPL
Sbjct: 1   MEQLAPLIAASINAGTPLLLAAIGLLINERSGVLNLGAEGMMLVAAIAGFAVGYTTKSPL 60

Query: 61  LGFLAGALCGMLMATLFSWLALVLATNQVATGLALSIFGAGLSAFIGQRFVGLALPSQST 120
           LGF+AGA+CGMLMATLF+WLAL LATNQVATGLALSIFGAGLSAF+GQRFVGLALP+QST
Sbjct: 61  LGFMAGAVCGMLMATLFAWLALRLATNQVATGLALSIFGAGLSAFVGQRFVGLALPAQST 120

Query: 121 GVPGLNNLPFVGPAFFTQHWMAYVALLLCAAIAWFLYRTRAGLILRAVGESPESAHALGY 180
            VP L +LPF+G A F QHWM+YVA  LC A  WFLYRTRAGL+LRAVGESPESAHALGY
Sbjct: 121 SVPLLGDLPFLGQALFHQHWMSYVAFALCLASIWFLYRTRAGLVLRAVGESPESAHALGY 180

Query: 181 SVRGIRFLALLFGGACCGLAGAYLSLVYTPMWVEGLVSGRGWIALALTAFATWRPARVLL 240
           SVRGIR+LALLFGGACCGLAGAY+SLVYTPMWVEGLV+GRGWIALALTAFATWRPARVLL
Sbjct: 181 SVRGIRYLALLFGGACCGLAGAYMSLVYTPMWVEGLVAGRGWIALALTAFATWRPARVLL 240

Query: 241 GSLLFGGVTILQFYLQGVGVTIPSQILSMLPYVATIVVLALISRNPDWIRLNMPASLGKP 300
           GSLLFGGVTI QFYLQG+GVT+PSQILSM PY+ATIVVLALISRNPDWIRLNMPASLGKP
Sbjct: 241 GSLLFGGVTIAQFYLQGMGVTVPSQILSMAPYLATIVVLALISRNPDWIRLNMPASLGKP 300

Query: 301 FRPGAS 306
           FRPGAS
Sbjct: 301 FRPGAS 306


>gi|300310743|ref|YP_003774835.1| ABC transporter permease
           [Herbaspirillum seropedicae SmR1]
          Length = 306

 Score =  140 bits (353), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 107/294 (36%), Positives = 156/294 (53%), Gaps = 7/294 (2%)

Query: 7   LIAASINAGTPLLLAAIGLLINERAGVLNLGAEGMMLVAAIAGFAVGYTTRSPLLGFLAG 66
           L A +I  GTP L  ++G  + E+ G +NLG EG+++  A+ G+A  + + S  LG LA 
Sbjct: 13  LFAGAIRVGTPFLFVSLGECLTEKGGRVNLGLEGILVCGAMTGYAASFYSGSAWLGVLAA 72

Query: 67  ALCGMLMATLFSWLALVLATNQVATGLALSIFGAGLSAFIGQRFV---GLALPSQSTGVP 123
              G+L+  L   +  +   N +A G+AL + G GL+ F+G+ F+      LPS   G  
Sbjct: 73  GCTGLLLGVLHGVVCSLPRVNDIAFGIALMLLGTGLAFFLGKPFIQPQAPMLPSIDLGAW 132

Query: 124 GLNNLPFVGPAFFTQHWMAYVALLLCAAIAWFLYRTRAGLILRAVGESPESAHALGYSVR 183
             N+           + + ++ ++L   + W L  TR GL LR VG+  E+A ALGY + 
Sbjct: 133 SSNDRLHHA---LQINALFFIGVVLALVLQWGLSATRWGLALRLVGDHAETARALGYRLT 189

Query: 184 GIRFLALLFGGACCGLAGAYLSLVYTPMWVEGLVSGRGWIALALTAFATWRPARVLLGSL 243
           G R  A   GG    + GAYLSL Y   W EGL SG+G +A+AL  FA W+P R LL +L
Sbjct: 190 GTRIAATAAGGFLAAVGGAYLSLYYPGSWNEGLSSGQGLMAVALVIFARWQPWRCLLAAL 249

Query: 244 LFGGVTILQFYLQGVGVTIPSQILSMLPYVATIVVLALISRNPDWIRLNMPASL 297
           LFG    L   LQ VGVT    + +  PY  T++++ +  R PD    + P  L
Sbjct: 250 LFGAAGALGPALQAVGVTSGYYLFNAAPYALTLLIMIMTCR-PDRTLSSAPGEL 302


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.327    0.141    0.439 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 1,015,964
Number of extensions: 44044
Number of successful extensions: 319
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 322
Number of HSP's successfully gapped: 4
Length of query: 306
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 221
Effective length of database: 1,217,395
Effective search space: 269044295
Effective search space used: 269044295
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 130 (54.7 bits)